1
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Haitjema J, Castellanos S, Lugier O, Bespalov I, Lindblad R, Timm M, Bülow C, Zamudio-Bayer V, Lau JT, von Issendorff B, Hoekstra R, Witte K, Watts B, Schlathölter T, Brouwer AM. Soft X-ray absorption and fragmentation of tin-oxo cage photoresists. Phys Chem Chem Phys 2024; 26:5986-5998. [PMID: 38293812 DOI: 10.1039/d3cp05428d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2024]
Abstract
"Tin-oxo cage" organometallic compounds are considered as photoresists for extreme ultraviolet (EUV) photolithography. To gain insight into their electronic structure and reactivity to ionizing radiation, we trapped bare gas-phase n-butyltin-oxo cage dications [(BuSn)12O14(OH)6]2+ in an ion trap and investigated their fragmentation upon soft X-ray photoabsorption by means of mass spectrometry. In complementary experiments, the tin-oxo cages with hydroxide and trifluoroacetate counter-anions were cast in thin films and studied using X-ray transmission spectroscopy. Quantum-chemical calculations were used to interpret the observed spectra. At the carbon K-edge, a distinct pre-edge absorption band can be attributed to transitions in which electrons are promoted from C1s orbitals to the lowest unoccupied molecular orbitals, which are delocalized orbitals with strong antibonding (Sn-C σ*) character. At higher energies, the most prominent resonant transitions involve C-C and C-H σ* valence states and Rydberg (3s and 3p) states. In the solid state, the onset of continuum ionization is shifted by ∼5 eV to lower energy with respect to the gas phase, due to the electrostatic effect of the counterions. The O K-edge also shows a pre-edge absorption, but it is devoid of any specific features, because there are many transitions from the different O1s orbitals to a large number of vacant orbitals. In the gas phase, formation of the parent [(BuSn)12O14(OH)6]3+ radical ion is not observed at the C K-edge nor at the O K-edge, because the loss of a butyl group from this species is very efficient. We do observe a number of triply charged photofragment ions, some of which have lost up to 5 butyl groups. Structures of these species are proposed based on quantum-chemical calculations, and pathways of formation are discussed. Our results provide insight into the electronic structure of alkyltin-oxo cages, which is a prerequisite for understanding their response to EUV photons and their performance as EUV photoresists.
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Affiliation(s)
- Jarich Haitjema
- Advanced Research Center for Nanolithography, P.O. Box 93019, 1090 BA Amsterdam, The Netherlands.
| | - Sonia Castellanos
- Advanced Research Center for Nanolithography, P.O. Box 93019, 1090 BA Amsterdam, The Netherlands.
| | - Olivier Lugier
- Advanced Research Center for Nanolithography, P.O. Box 93019, 1090 BA Amsterdam, The Netherlands.
| | - Ivan Bespalov
- Advanced Research Center for Nanolithography, P.O. Box 93019, 1090 BA Amsterdam, The Netherlands.
| | - Rebecka Lindblad
- Department of Physics, Lund University, 22100 Lund, Sweden
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz Zentrum Berlin für Materialien und Energie, Albert-Einstein-Straße 15, 12489 Berlin, Germany
| | - Martin Timm
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz Zentrum Berlin für Materialien und Energie, Albert-Einstein-Straße 15, 12489 Berlin, Germany
| | - Christine Bülow
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz Zentrum Berlin für Materialien und Energie, Albert-Einstein-Straße 15, 12489 Berlin, Germany
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg, Hermann-Herder-Straße 3, 79104 Freiburg, Germany
| | - Vicente Zamudio-Bayer
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz Zentrum Berlin für Materialien und Energie, Albert-Einstein-Straße 15, 12489 Berlin, Germany
| | - J Tobias Lau
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz Zentrum Berlin für Materialien und Energie, Albert-Einstein-Straße 15, 12489 Berlin, Germany
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg, Hermann-Herder-Straße 3, 79104 Freiburg, Germany
| | - Bernd von Issendorff
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg, Hermann-Herder-Straße 3, 79104 Freiburg, Germany
| | - Ronnie Hoekstra
- Advanced Research Center for Nanolithography, P.O. Box 93019, 1090 BA Amsterdam, The Netherlands.
- Zernike Institute for Advanced Materials, Rijksuniversiteit Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.
| | | | | | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, Rijksuniversiteit Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.
- University College Groningen, University of Groningen, Hoendiepskade 23/24, 9718 BG Groningen, The Netherlands
| | - Albert M Brouwer
- Advanced Research Center for Nanolithography, P.O. Box 93019, 1090 BA Amsterdam, The Netherlands.
- University of Amsterdam, van't Hoff Institute for Molecular Sciences, P.O. Box 94157, 1090 GD Amsterdam, The Netherlands
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2
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Chevalier F, Schlathölter T, Poully JC. Radiation-Induced Transfer of Charge, Atoms, and Energy within Isolated Biomolecular Systems. Chembiochem 2023; 24:e202300543. [PMID: 37712497 DOI: 10.1002/cbic.202300543] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Revised: 09/12/2023] [Accepted: 09/14/2023] [Indexed: 09/16/2023]
Abstract
In biological tissues, ionizing radiation interacts with a variety of molecules and the consequences include cell killing and the modification of mechanical properties. Applications of biological radiation action are for instance radiotherapy, sterilization, or the tailoring of biomaterial properties. During the first femtoseconds to milliseconds after the initial radiation action, biomolecular systems typically respond by transfer of charge, atoms, or energy. In the condensed phase, it is usually very difficult to distinguish direct effects from indirect effects. A straightforward solution for this problem is the use of gas-phase techniques, for instance from the field of mass spectrometry. In this review, we survey mainly experimental but also theoretical work, focusing on radiation-induced intra- and inter-molecular transfer of charge, atoms, and energy within biomolecular systems in the gas phase. Building blocks of DNA, proteins, and saccharides, but also antibiotics are considered. The emergence of general processes as well as their timescales and mechanisms are highlighted.
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Affiliation(s)
- François Chevalier
- CIMAP UMR 6252, CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel, 14070, Caen, France
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen, Groningen (The, Netherlands
- University College Groningen, University of Groningen, Groningen (The, Netherlands
| | - Jean-Christophe Poully
- CIMAP UMR 6252, CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel, 14070, Caen, France
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3
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Abdelmouleh M, Amin M, Lalande M, Schlathölter T, Poully JC. Ionizing radiation induces cross-linking of two noncovalently bound collagen mimetic peptide triple helices in the absence of a molecular environment. Phys Chem Chem Phys 2023; 25:29249-29256. [PMID: 37874154 DOI: 10.1039/d3cp03264g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2023]
Abstract
Cross-linking is a fundamental molecular process that is highly important for many applications, in particular, to tune the properties of collagen-based biomaterials. Chemical reagents, the action of enzymes or physical factors such as heat or radiation can facilitate collagen cross-linking. Ionizing radiation has the advantages of being fast, efficient and free from potentially toxic reagents. Collagen cross-linking by ionizing radiation is thought to occur via a water-mediated pathway. In the past, synthesized collagen mimetic peptides have proven to be of great value for understanding the influence of the amino acid sequence on the stability of tertiary (fibrous) as well as secondary (triple helical) structures of collagen. Cross-linking of synthetic collagen mimetic peptides is often used for modifying the properties of biomaterials. In this work, for the first time, we apply radiation-induced cross-linking to synthetic collagen mimetic peptides and present an experimental and theoretical study of peptide hexamers consisting of two noncovalently bound triple helices in the absence of a molecular environment, i.e. in the gas phase. Our results show that X-ray photoabsorption of the hydroxylated hexamer leads to ionization and cross-linking of the two triple helices: thus, we found evidence that cross-linking can be achieved by ionizing radiation, without the presence of any reagent or water. We propose a cross-linking mechanism involving the creation of two radicals on hydroxyproline side-chains and their recombination, ultimately leading to covalent bond formation between the triple helices.
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Affiliation(s)
- Marwa Abdelmouleh
- CIMAP UMR 6252 CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel 14070 Caen, France.
| | - Muhamed Amin
- University College Groningen, Hoendiep 23/24, 9718BG Groningen, The Netherlands
- Laboratory of Computational Biology, National Heart, Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland 20892, USA
| | - Mathieu Lalande
- CIMAP UMR 6252 CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel 14070 Caen, France.
| | - Thomas Schlathölter
- University College Groningen, Hoendiep 23/24, 9718BG Groningen, The Netherlands
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - Jean-Christophe Poully
- CIMAP UMR 6252 CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel 14070 Caen, France.
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4
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Kotobi A, Singh K, Höche D, Bari S, Meißner RH, Bande A. Integrating Explainability into Graph Neural Network Models for the Prediction of X-ray Absorption Spectra. J Am Chem Soc 2023; 145:22584-22598. [PMID: 37807700 PMCID: PMC10591337 DOI: 10.1021/jacs.3c07513] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2023] [Indexed: 10/10/2023]
Abstract
The use of sophisticated machine learning (ML) models, such as graph neural networks (GNNs), to predict complex molecular properties or all kinds of spectra has grown rapidly. However, ensuring the interpretability of these models' predictions remains a challenge. For example, a rigorous understanding of the predicted X-ray absorption spectrum (XAS) generated by such ML models requires an in-depth investigation of the respective black-box ML model used. Here, this is done for different GNNs based on a comprehensive, custom-generated XAS data set for small organic molecules. We show that a thorough analysis of the different ML models with respect to the local and global environments considered in each ML model is essential for the selection of an appropriate ML model that allows a robust XAS prediction. Moreover, we employ feature attribution to determine the respective contributions of various atoms in the molecules to the peaks observed in the XAS spectrum. By comparing this peak assignment to the core and virtual orbitals from the quantum chemical calculations underlying our data set, we demonstrate that it is possible to relate the atomic contributions via these orbitals to the XAS spectrum.
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Affiliation(s)
- Amir Kotobi
- Helmholtz-Zentrum
Hereon, Institute of Surface
Science, Geesthacht, DE 21502, Germany
| | - Kanishka Singh
- Helmholtz-Zentrum
Berlin für Materialien und Energie GmbH, Berlin, DE 10409, Germany
- Institute
of Chemistry and Biochemistry, Freie Universität
Berlin, Berlin, DE 14195, Germany
| | - Daniel Höche
- Helmholtz-Zentrum
Hereon, Institute of Surface
Science, Geesthacht, DE 21502, Germany
| | - Sadia Bari
- Deutsches
Elektronen-Synchrotron DESY, Hamburg, DE 22607, Germany
- Zernike
Institute for Advanced Materials, University
of Groningen, Groningen 9712, Netherlands
| | - Robert H. Meißner
- Helmholtz-Zentrum
Hereon, Institute of Surface
Science, Geesthacht, DE 21502, Germany
- Hamburg
University of Technology, Institute of Polymers
and Composites, Hamburg, DE 21073, Germany
| | - Annika Bande
- Helmholtz-Zentrum
Berlin für Materialien und Energie GmbH, Berlin, DE 10409, Germany
- Leibniz
University Hannover, Institute of Inorganic
Chemistry, Hannover, DE 30167, Germany
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5
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Leroux J, Kotobi A, Hirsch K, Lau T, Ortiz-Mahecha C, Maksimov D, Meißner R, Oostenrijk B, Rossi M, Schubert K, Timm M, Trinter F, Unger I, Zamudio-Bayer V, Schwob L, Bari S. Mapping the electronic transitions of protonation sites in peptides using soft X-ray action spectroscopy. Phys Chem Chem Phys 2023; 25:25603-25618. [PMID: 37721108 DOI: 10.1039/d3cp02524a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/19/2023]
Abstract
Near-edge X-ray absorption mass spectrometry (NEXAMS) around the nitrogen and oxygen K-edges was employed on gas-phase peptides to probe the electronic transitions related to their protonation sites, namely at basic side chains, the N-terminus and the amide oxygen. The experimental results are supported by replica exchange molecular dynamics and density-functional theory and restricted open-shell configuration with single calculations to attribute the transitions responsible for the experimentally observed resonances. We studied five tailor-made glycine-based pentapeptides, where we identified the signature of the protonation site of N-terminal proline, histidine, lysine and arginine, at 406 eV, corresponding to N 1s → σ*(NHx+) (x = 2 or 3) transitions, depending on the peptides. We compared the spectra of pentaglycine and triglycine to evaluate the sensitivity of NEXAMS to protomers. Separate resonances have been identified to distinguish two protomers in triglycine, the protonation site at the N-terminus at 406 eV and the protonation site at the amide oxygen characterized by a transition at 403.1 eV.
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Affiliation(s)
- Juliette Leroux
- CIMAP, CEA/CNRS/ENSICAEN/Université de Caen Normandie, 14050 Caen, France
- Deutsches Elektronen-Synchrotron DESY, Germany.
| | - Amir Kotobi
- Deutsches Elektronen-Synchrotron DESY, Germany.
- Helmholtz-Zentrum Hereon, Institute of Surface Science, 21502 Geesthacht, Germany
| | - Konstantin Hirsch
- Abteilung Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, 12489 Berlin, Germany
| | - Tobias Lau
- Abteilung Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, 12489 Berlin, Germany
| | - Carlos Ortiz-Mahecha
- Hamburg University of Technology, Institute of Polymers and Composites, 21073 Hamburg, Germany
| | - Dmitrii Maksimov
- Max Planck Institute for the Structure and Dynamics of Matter, 22761 Hamburg, Germany
| | - Robert Meißner
- Helmholtz-Zentrum Hereon, Institute of Surface Science, 21502 Geesthacht, Germany
- Hamburg University of Technology, Institute of Polymers and Composites, 21073 Hamburg, Germany
| | | | - Mariana Rossi
- Max Planck Institute for the Structure and Dynamics of Matter, 22761 Hamburg, Germany
| | | | - Martin Timm
- Abteilung Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, 12489 Berlin, Germany
| | - Florian Trinter
- Institut für Kernphysik, Goethe-Universität Frankfurt am Main, 60438 Frankfurt am Main, Germany
- Molecular Physics, Fritz-Haber-Institut der Max-Planck-Gesellschaft, 14195 Berlin, Germany
| | - Isaak Unger
- Department of Physics and Astronomy, Uppsala University, 75120 Uppsala, Sweden
| | - Vicente Zamudio-Bayer
- Abteilung Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, 12489 Berlin, Germany
| | | | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESY, Germany.
- The Hamburg Centre for Ultrafast Imaging, Hamburg, Germany
- Zernike Institute for Advanced Materials, University of Groningen, 9747 AG Groningen, The Netherlands
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6
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Liu M, O'Reilly D, Schwob L, Wang X, Zamudio-Bayer V, Lau JT, Bari S, Schlathölter T, Poully JC. Direct Observation of Charge, Energy, and Hydrogen Transfer between the Backbone and Nucleobases in Isolated DNA Oligonucleotides. Chemistry 2023; 29:e202203481. [PMID: 36478608 DOI: 10.1002/chem.202203481] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2022] [Revised: 12/06/2022] [Accepted: 12/07/2022] [Indexed: 12/13/2022]
Abstract
Understanding how charge and energy, as well as protons and hydrogen atoms, are transferred in molecular systems as a result of an electronic excitation is fundamental for understanding the interaction between ionizing radiation and biological matter on the molecular level. To localize the excitation at the atomic scale, it was chosen to target phosphorus atoms in the backbone of gas-phase oligonucleotide anions and cations, by means of resonant photoabsorption at the L- and K-edges. The ionic photoproducts of the excitation process were studied by a combination of mass spectrometry and X-ray spectroscopy. The combination of absorption site selectivity and photoproduct sensitivity allowed the identification of X-ray spectral signatures of specific processes. Moreover, charge and/or energy as well as H transfer from the backbone to nucleobases has been directly observed. Although the probability of one versus two H transfer following valence ionization depends on the nucleobase, ionization of sugar or phosphate groups at the carbon K-edge or the phosphorus L-edge mainly leads to single H transfer to protonated adenine. Moreover, our results indicate a surprising proton-transfer process to specifically form protonated guanine after excitation or ionization of P 2p electrons.
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Affiliation(s)
- Min Liu
- CIMAP UMR 6252, CEA/, CNRS/, ENSICAEN/, Université de Caen Normandie, Bd Becquerel, 14070, Caen, France
| | - David O'Reilly
- CIMAP UMR 6252, CEA/, CNRS/, ENSICAEN/, Université de Caen Normandie, Bd Becquerel, 14070, Caen, France
| | | | - Xin Wang
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands
| | | | - J Tobias Lau
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg, Freiburg, Germany.,Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Berlin, Germany
| | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESY, Germany
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.,University College Groningen, University of Groningen, Groningen, The Netherlands
| | - Jean-Christophe Poully
- CIMAP UMR 6252, CEA/, CNRS/, ENSICAEN/, Université de Caen Normandie, Bd Becquerel, 14070, Caen, France
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7
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On-the-fly investigation of XUV excited large molecular ions using a high harmonic generation light source. Sci Rep 2022; 12:13191. [PMID: 35915132 PMCID: PMC9343369 DOI: 10.1038/s41598-022-17416-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2022] [Accepted: 07/25/2022] [Indexed: 11/25/2022] Open
Abstract
We present experiments where extreme ultraviolet femtosecond light pulses are used to photoexcite large molecular ions at high internal energy. This is done by combining an electrospray ionization source and a mass spectrometer with a pulsed light source based on high harmonic generation. This allows one to study the interaction between high energy photons and mass selected ions in conditions that are accessible on large-scale facilities. We show that even without an ion trapping device, systems as large as a protein can be studied. We observe light induced dissociative ionization and proton migration in model systems such as reserpine, insulin and cytochrome c. These results offer new perspectives to perform time-resolved experiments with ultrashort pulses at the heart of the emerging field of attosecond chemistry.
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8
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Wang X, Rathnachalam S, Zamudio-Bayer V, Bijlsma K, Li W, Hoekstra R, Kubin M, Timm M, von Issendorff B, Lau JT, Faraji S, Schlathölter T. Intramolecular hydrogen transfer in DNA induced by site-selective resonant core excitation. Phys Chem Chem Phys 2022; 24:7815-7825. [PMID: 35297440 PMCID: PMC8966622 DOI: 10.1039/d1cp05741c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We present experimental evidence for soft X-ray induced intramolecular hydrogen transfer in the protonated synthetic tri-oligonucleotide d($^{\mbox{\footnotesize{F}}}$UAG) in the gas-phase. The trinucleotide cations were stored in a cryogenic ion trap...
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Affiliation(s)
- Xin Wang
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
| | - Sivasudhan Rathnachalam
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
| | - Vicente Zamudio-Bayer
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Berlin, Germany
| | - Klaas Bijlsma
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
| | - Wen Li
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
| | - Ronnie Hoekstra
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
| | - Markus Kubin
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Berlin, Germany
| | - Martin Timm
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Berlin, Germany
| | | | - J Tobias Lau
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Berlin, Germany
- Physikalisches Institut, Universität Freiburg, Freiburg, Germany
| | - Shirin Faraji
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen, Groningen, The Netherlands.
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9
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Li W, Kavatsyuk O, Douma W, Wang X, Hoekstra R, Mayer D, Robinson MS, Gühr M, Lalande M, Abdelmouleh M, Ryszka M, Poully JC, Schlathölter T. Multiple valence electron detachment following Auger decay of inner-shell vacancies in gas-phase DNA. Chem Sci 2021; 12:13177-13186. [PMID: 34745549 PMCID: PMC8513815 DOI: 10.1039/d1sc02885e] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Accepted: 09/10/2021] [Indexed: 01/05/2023] Open
Abstract
We have studied soft X-ray photoabsorption in the doubly deprotonated gas-phase oligonucleotide [dTGGGGT–2H]2−. The dominating decay mechanism of the X-ray induced inner shell vacancy was found to be Auger decay with detachment of at least three electrons, leading to charge reversal of the anionic precursor and the formation of positively charged photofragment ions. The same process is observed in heavy ion (12 MeV C4+) collisions with [dTGGGGT–2H]2− where inner shell vacancies are generated as well, but with smaller probability. Auger decay of a single K-vacancy in DNA, followed by detachment of three or more low energy electrons instead of a single high energy electron has profound implications for DNA damage and damage modelling. The production of three low kinetic energy electrons with short mean free path instead of one high kinetic energy electron with long mean free path implies that electron-induced DNA damage will be much more localized around the initial K-shell vacancy. The fragmentation channels, triggered by triple electron detachment Auger decay are predominantly related to protonated guanine base loss and even loss of protonated guanine dimers is tentatively observed. The fragmentation is not a consequence of the initial K-shell vacancy but purely due to multiple detachment of valence electrons, as a very similar positive ion fragmentation pattern is observed in femtosecond laser-induced dissociation experiments. A K-shell vacancy in DNA that is induced by a (therapeutically relevant) soft X-ray of MeV carbon ion, decays by Auger processes accompanied by emission of at least 3 low energy electrons.![]()
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Affiliation(s)
- Wen Li
- University of Groningen, Zernike Institute for Advanced Materials Nijenborgh 4 9747AG Groningen Netherlands
| | - Oksana Kavatsyuk
- University College Groningen Hoendiep 23/24 9718BG Groningen Netherlands
| | - Wessel Douma
- University of Groningen, Zernike Institute for Advanced Materials Nijenborgh 4 9747AG Groningen Netherlands
| | - Xin Wang
- University of Groningen, Zernike Institute for Advanced Materials Nijenborgh 4 9747AG Groningen Netherlands
| | - Ronnie Hoekstra
- University of Groningen, Zernike Institute for Advanced Materials Nijenborgh 4 9747AG Groningen Netherlands
| | - Dennis Mayer
- Universität Potsdam, Institut für Physik und Astronomie 14476 Potsdam Germany
| | - Matthew S Robinson
- Universität Potsdam, Institut für Physik und Astronomie 14476 Potsdam Germany.,Centre for Free Electron Lasers (CFEL), DESY Notkestraße 85 22607 Hamburg Germany
| | - Markus Gühr
- Universität Potsdam, Institut für Physik und Astronomie 14476 Potsdam Germany
| | - Mathieu Lalande
- CIMAP UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen Cedex 5 France
| | - Marwa Abdelmouleh
- CIMAP UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen Cedex 5 France
| | - Michal Ryszka
- CIMAP UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen Cedex 5 France
| | - Jean Christophe Poully
- CIMAP UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen Cedex 5 France
| | - Thomas Schlathölter
- University of Groningen, Zernike Institute for Advanced Materials Nijenborgh 4 9747AG Groningen Netherlands
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10
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Haitjema J, Wu L, Giuliani A, Nahon L, Castellanos S, Brouwer AM. UV and VUV-induced fragmentation of tin-oxo cage ions. Phys Chem Chem Phys 2021; 23:20909-20918. [PMID: 34533559 DOI: 10.1039/d1cp03148a] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Photoresist materials are being optimized for the recently introduced Extreme Ultraviolet (EUV) photolithographic technology. Organometallic compounds are potential candidates for replacing the ubiquitous polymer-based chemically amplified resists. Tin (Sn) has a particularly large absorption cross section for EUV light (13.5 nm, 92 eV), which could lead to a lower required EUV dose for achieving the desired solubility change (improved sensitivity). However, the fundamental interaction between organometallic materials and higher energy photons is poorly understood. In this work, we exposed n-butyltin-oxo cage dications (M2+) in the gas phase to photons in the energy range 4-35 eV to explore their fundamental photoreactivity. Photoproducts were detected using mass spectrometry. Homolytic cleavage of tin-carbon bonds was observed for all photon energies above the onset of electronic absorption at ∼5 eV (∼250 nm), leading to photoproducts which have lost one or more of the attached butyl groups (Bu). Above 12 eV (<103 nm), dissociative photoionization occurred for the dication (M2+), competing with the neutral loss channels. The photoionization threshold is lowered by approximately 2 eV when one counterion (triflate, OTf- or tosylate, OTs-) is attached to the tin-oxo cage (MOTf+ and MOTs+). This threshold is expected to be even lower if each tin-oxo cage is attached to two counterions, as is the case in a solid film of tin-oxo cages. Addition of counterions also affected the fragmentation pathways; photoexcitation of (MX)+ (X = counterion, OTf or OTs) always led to formation of (MX-2Bu)+ rather than (MX-Bu)+. MOTs+ was much more reactive than MOTf+ in terms of reaction products per absorbed photon. A possible explanation for this is proposed, which involves the counterion reacting with the initially formed tin-based radical.
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Affiliation(s)
- Jarich Haitjema
- Advanced Research Center for Nanolithography, P. O. Box 93019, 1090 BA Amsterdam, The Netherlands.
| | - Lianjia Wu
- Advanced Research Center for Nanolithography, P. O. Box 93019, 1090 BA Amsterdam, The Netherlands.
| | - Alexandre Giuliani
- UAR 1008 Transfrom, INRAE, F-44316 Nantes, France
- Synchrotron SOLEIL, L'Orme des Merisiers, BP 48 Saint Aubin, 91192 Gif-sur-Yvette, France
| | - Laurent Nahon
- Synchrotron SOLEIL, L'Orme des Merisiers, BP 48 Saint Aubin, 91192 Gif-sur-Yvette, France
| | - Sonia Castellanos
- Advanced Research Center for Nanolithography, P. O. Box 93019, 1090 BA Amsterdam, The Netherlands.
| | - Albert M Brouwer
- Advanced Research Center for Nanolithography, P. O. Box 93019, 1090 BA Amsterdam, The Netherlands.
- University of Amsterdam, van't Hoff Institute for Molecular Sciences, P. O. Box 94157, 1090 GD Amsterdam, The Netherlands
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11
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Schubert K, Schwob L, Dörner S, Girod M, MacAleese L, Pieterse CL, Schlathölter T, Techert S, Bari S. Ionization and Photofragmentation of Isolated Metalloporphyrin Cations Investigated by VUV Action Spectroscopy*. Chemistry 2021; 27:12371-12379. [PMID: 34137472 PMCID: PMC8457234 DOI: 10.1002/chem.202101515] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2021] [Indexed: 11/13/2022]
Abstract
We investigated the photoionization and fragmentation of isolated metal protoporphyrin IX cations (MPPIX+ with M=Fe, Co, Zn) by means of vacuum-ultraviolet (VUV) action spectroscopy in the energy range of 8.5-35 eV. Experiments were carried out in the gas phase by interfacing an electrospray ionization tandem mass spectrometer with a synchrotron beamline. The mass spectra and partial ion yields show that photoexcitation of the precursor ions predominantly leads to . CH2 COOH radical side-chain losses of the macrocycle with additional methyl radical (. CH3 ) side-chain losses. Ionization, in contrast, leads to the formation of the intact ionized precursor and various doubly charged fragments which are mostly due to side-chain cleavages. Although statistical fragmentation dominates, we found evidence for non-statistical processes such as new fragments involving for example single and double H2 O losses, indicating that different relaxation mechanisms are at play upon photoionization compared to photoexcitation. The measured ionization energies were 9.6±0.2 eV, 9.4±0.2 eV and 9.6±0.2 eV for FePPIX+ , CoPPIX+ and ZnPPIX+ , respectively.
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Affiliation(s)
- Kaja Schubert
- Deutsches Elektronen-Synchrotron DESYNotkestr. 8522607HamburgGermany
| | - Lucas Schwob
- Deutsches Elektronen-Synchrotron DESYNotkestr. 8522607HamburgGermany
| | - Simon Dörner
- Deutsches Elektronen-Synchrotron DESYNotkestr. 8522607HamburgGermany
| | - Marion Girod
- Univ LyonUniversité Claude Bernard Lyon 1CNRS UMR 5280Institut des Sciences Analytiques5 rue de la Doua69100VilleurbanneFrance
| | - Luke MacAleese
- Univ LyonUniversité Claude Bernard Lyon 1CNRS UMR 5306Institut Lumière Matière69622LyonFrance
| | | | - Thomas Schlathölter
- Zernike Institute for Advanced MaterialsUniversity of GroningenNijenborgh 49747 AGGroningenThe Netherlands
| | - Simone Techert
- Deutsches Elektronen-Synchrotron DESYNotkestr. 8522607HamburgGermany
- Institut für RöntgenphysikGeorg-August-Universität GöttingenFriedrich-Hund-Platz 137077GöttingenGermany
| | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESYNotkestr. 8522607HamburgGermany
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12
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Couto RC, Hua W, Lindblad R, Kjellsson L, Sorensen SL, Kubin M, Bülow C, Timm M, Zamudio-Bayer V, von Issendorff B, Söderström J, Lau JT, Rubensson JE, Ågren H, Carravetta V. Breaking inversion symmetry by protonation: experimental and theoretical NEXAFS study of the diazynium ion, N 2H . Phys Chem Chem Phys 2021; 23:17166-17176. [PMID: 34346432 DOI: 10.1039/d1cp02002a] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
As an example of symmetry breaking in NEXAFS spectra of protonated species we present a high resolution NEXAFS spectrum of protonated dinitrogen, the diazynium ion N2H+. By ab initio calculations we show that the spectrum consists of a superposition of two nitrogen 1s absorption spectra, each including a π* band, and a nitrogen 1s to H+ charge transfer band followed by a weak irregular progression of high energy excitations. Calculations also show that, as an effect of symmetry breaking by protonation, the π* transitions are separated by 0.23 eV, only slightly exceeding the difference in the corresponding dark (symmetry forbidden) and bright (symmetry allowed) core excitations of neutral N2. By DFT and calculations and vibrational analysis, the complex π* excitation band of N2H+ is understood as due to the superposition of the significantly different vibrational progressions of excitations from terminal and central nitrogen atoms, both leading to bent final state geometries. We also show computationally that the electronic structure of the charge transfer excitation smoothly depends on the nitrogen-proton distance and that there is a clear extension of the spectra going from infinity to close nitrogen-proton distance where fine structures show some, although not fully detailed, similarities. An interesting feature of partial localization of the nitrogen core orbitals, with a strong, non-monotonous, variation with nitrogen-proton distance could be highlighted. Specific effects could be unraveled when comparing molecular cation NEXAFS spectra, as represented by recently recorded spectra of N2+ and CO+, and spectra of protonated molecules as represented here by the N2H+ ion. Both types containing rich physical effects not represented in NEXAFS of neutral molecules because of the positive charge, whereas protonation also breaks the symmetry. The effect of the protonation on dinitrogen can be separated in charge, which extends the high-energy part of the spectrum, and symmetry-breaking, which is most clearly seen in the low-energy π* transition.
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Affiliation(s)
- Rafael C Couto
- Department of Theoretical Chemistry and Biology, School of Chemistry, Biotechnology and Health, Royal Institute of Technology, SE-106 91, Stockholm, Sweden.
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13
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Dörner S, Schwob L, Atak K, Schubert K, Boll R, Schlathölter T, Timm M, Bülow C, Zamudio-Bayer V, von Issendorff B, Lau JT, Techert S, Bari S. Probing Structural Information of Gas-Phase Peptides by Near-Edge X-ray Absorption Mass Spectrometry. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2021; 32:670-684. [PMID: 33573373 DOI: 10.1021/jasms.0c00390] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Near-edge X-ray absorption mass spectrometry (NEXAMS) is an action-spectroscopy technique of growing interest for investigations into the spatial and electronic structure of biomolecules. It has been used successfully to give insights into different aspects of the photodissociation of peptides and to probe the conformation of proteins. It is a current question whether the fragmentation pathways are sensitive toward effects of conformational isomerism, tautomerism, and intramolecular interactions in gas-phase peptides. To address this issue, we studied the cationic fragments of cryogenically cooled gas-phase leucine enkephalin ([LeuEnk+H]+) and methionine enkephalin ([MetEnk+H]+) produced upon soft X-ray photon absorption at the carbon, nitrogen, and oxygen K-edges. The interpretation of the experimental ion yield spectra was supported by density-functional theory and restricted-open-shell configuration interaction with singles (DFT/ROCIS) calculations. The analysis revealed several effects that could not be rationalized based on the peptide's amino acid sequences alone. Clear differences between the partial ion yields measured for both peptides upon C 1s → π*(C═C) excitations in the aromatic amino acid side chains give evidence for a sulfur-aromatic interaction between the methionine and phenylalanine side chain of [MetEnk+H]+. Furthermore, a peak associated with N 1s → π*(C═N) transitions, linked to a tautomeric keto-to-enol conversion of peptide bonds, was only present in the photon energy resolved ion yield spectra of [MetEnk+H]+.
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Affiliation(s)
- Simon Dörner
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
| | - Lucas Schwob
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
| | - Kaan Atak
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
| | - Kaja Schubert
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
| | - Rebecca Boll
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
- European XFEL, Holzkoppel 4, 22869 Schenefeld, Germany
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG Groningen, The Netherlands
| | - Martin Timm
- Abteilung Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Strasse 15, 12489 Berlin, Germany
| | - Christine Bülow
- Abteilung Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Strasse 15, 12489 Berlin, Germany
| | - Vicente Zamudio-Bayer
- Abteilung Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Strasse 15, 12489 Berlin, Germany
| | - Bernd von Issendorff
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg, Hermann-Herder-Strasse 3, 79104 Freiburg, Germany
| | - J Tobias Lau
- Abteilung Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Strasse 15, 12489 Berlin, Germany
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg, Hermann-Herder-Strasse 3, 79104 Freiburg, Germany
| | - Simone Techert
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
- Institut für Röntgenphysik, Georg-August-Universität Göttingen, Friedrich-Hund-Platz 1, 37077 Göttingen, Germany
| | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESY, Notkestrasse 85, 22607 Hamburg, Germany
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14
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Abdelmouleh M, Lalande M, El Feghaly J, Vizcaino V, Rebelo A, Eden S, Schlathölter T, Poully JC. Mass Spectral Signatures of Complex Post-Translational Modifications in Proteins: A Proof-of-Principle Based on X-ray Irradiated Vancomycin. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2020; 31:1738-1743. [PMID: 32551638 DOI: 10.1021/jasms.0c00169] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Characterizing post-translational modifications (PTM) of proteins is of key relevance for the understanding of many biological processes, as these covalent modifications strongly influence or even determine protein function. Among the different analytical techniques available, mass spectrometry is attracting growing attention because recent instrumental and computational improvements have led to a massive rise of the number of PTM sites that can be identified and quantified. However, multiple PTM occurring at adjacent amino acid residues can lead to complex and dense chemical patterns that are a challenge to characterize. By means of X-ray synchrotron radiation coupled to mass spectrometry, and through the test-case of the glycopeptide antibiotic vancomycin, we show that such a pattern has a unique and robust signature in terms of photon energy and molecular environment. This highlights the potential of this technique in proteomics and its value as a tool to understand the biological roles of PTM.
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Affiliation(s)
- Marwa Abdelmouleh
- CIMAP, UMR 6252 CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel, 14070 Caen, France
| | - Mathieu Lalande
- CIMAP, UMR 6252 CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel, 14070 Caen, France
| | - Johnny El Feghaly
- CIMAP, UMR 6252 CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel, 14070 Caen, France
| | - Violaine Vizcaino
- CIMAP, UMR 6252 CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel, 14070 Caen, France
| | - André Rebelo
- School of Physical Sciences, The Open University, Walton Hall, Milton Keynes MK7 6AA, U.K
- Atomic and Molecular Collisions Laboratory, CEFITEC, Department of Physics, FCT - Universidade NOVA de Lisboa, P-2829-516 Caparica, Portugal
| | - Samuel Eden
- School of Physical Sciences, The Open University, Walton Hall, Milton Keynes MK7 6AA, U.K
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG Groningen, Netherlands
| | - Jean-Christophe Poully
- CIMAP, UMR 6252 CEA/CNRS/ENSICAEN/Université de Caen Normandie, Bd Becquerel, 14070 Caen, France
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15
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Satta M, Cartoni A, Catone D, Castrovilli MC, Bolognesi P, Zema N, Avaldi L. The Reaction of Sulfur Dioxide Radical Cation with Hydrogen and its Relevance in Solar Geoengineering Models. Chemphyschem 2020; 21:1146-1156. [PMID: 32203633 DOI: 10.1002/cphc.202000194] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2020] [Revised: 03/23/2020] [Indexed: 11/06/2022]
Abstract
SO2 has been proposed in solar geoengineering as a precursor of H2 SO4 aerosol, a cooling agent active in the stratosphere to contrast climate change. Atmospheric ionization sources can ionize SO2 into excited states of S O 2 · + , which quickly reacts with trace gases in the stratosphere. In this work we explore the reaction of H 2 D 2 with S O 2 · + excited by tunable synchrotron radiation, leading to H S O 2 + + H ( D S O 2 + + D ), where H contributes to O3 depletion and OH formation. Density Functional Theory and Variational Transition State Theory have been used to investigate the dynamics of the title barrierless and exothermic reaction. The present results suggest that solar geoengineering models should test the reactivity of S O 2 · + with major trace gases in the stratosphere, such as H2 since this is a relevant channel for the OH formation during the nighttime when there is not OH production by sunlight. OH oxides SO2 , triggering the chemical reactions leading to H2 SO4 aerosol.
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Affiliation(s)
- Mauro Satta
- ISMN (CNR) c/o Dipartimento di Chimica Sapienza Universita' di Roma, Pl.e Aldo Moro 5, Roma, Italy
| | - Antonella Cartoni
- Dipartimento di Chimica, Sapienza Universitá di Roma, Pl.e Aldo Moro 5, Roma, Italy
| | - Daniele Catone
- CNR-ISM, Area della Ricerca di Tor Vergata, Via del Fosso del Cavaliere, Roma, Italy
| | | | - Paola Bolognesi
- CNR-ISM, Area della Ricerca di Roma 1, Via Salaria Km 29,300, Monterotondo Scalo (RM), Italy
| | - Nicola Zema
- CNR-ISM, Area della Ricerca di Tor Vergata, Via del Fosso del Cavaliere, Roma, Italy
| | - Lorenzo Avaldi
- CNR-ISM, Area della Ricerca di Roma 1, Via Salaria Km 29,300, Monterotondo Scalo (RM), Italy
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16
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Schwob L, Dörner S, Atak K, Schubert K, Timm M, Bülow C, Zamudio-Bayer V, von Issendorff B, Lau JT, Techert S, Bari S. Site-Selective Dissociation upon Sulfur L-Edge X-ray Absorption in a Gas-Phase Protonated Peptide. J Phys Chem Lett 2020; 11:1215-1221. [PMID: 31978303 DOI: 10.1021/acs.jpclett.0c00041] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Site-selective dissociation induced by core photoexcitation of biomolecules is of key importance for the understanding of radiation damage processes and dynamics and for its promising use as "chemical scissors" in various applications. However, identifying products of site-selective dissociation in large molecules is challenging at the carbon, nitrogen, and oxygen edges because of the high recurrence of these atoms and related chemical groups. In this paper, we present the observation of site-selective dissociation at the sulfur L-edge in the gas-phase peptide methionine enkephalin, which contains only a single sulfur atom. Near-edge X-ray absorption mass spectrometry has revealed that the resonant S 2p → σ*C-S excitation of the sulfur contained in the methionine side chain leads to site-selective dissociation, which is not the case after core ionization above the sulfur L-edge. The prospects of such results for the study of charge dynamics in biomolecular systems are discussed.
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Affiliation(s)
- Lucas Schwob
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
| | - Simon Dörner
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
| | - Kaan Atak
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
| | - Kaja Schubert
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
| | - Martin Timm
- Abteilung für Hochempfindliche Röntgenspektroskopie , Helmholtz Zentrum Berlin für Materialien und Energie , Albert-Einstein-Strasse 15 , 12489 Berlin , Germany
| | - Christine Bülow
- Abteilung für Hochempfindliche Röntgenspektroskopie , Helmholtz Zentrum Berlin für Materialien und Energie , Albert-Einstein-Strasse 15 , 12489 Berlin , Germany
| | - Vicente Zamudio-Bayer
- Abteilung für Hochempfindliche Röntgenspektroskopie , Helmholtz Zentrum Berlin für Materialien und Energie , Albert-Einstein-Strasse 15 , 12489 Berlin , Germany
| | - Bernd von Issendorff
- Physikalisches Institut , Universität Freiburg , Hermann-Herder-Straße 3 , 79104 Freiburg , Germany
| | - J Tobias Lau
- Abteilung für Hochempfindliche Röntgenspektroskopie , Helmholtz Zentrum Berlin für Materialien und Energie , Albert-Einstein-Strasse 15 , 12489 Berlin , Germany
- Physikalisches Institut , Universität Freiburg , Hermann-Herder-Straße 3 , 79104 Freiburg , Germany
| | - Simone Techert
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
- Institute of X-ray Physics , University of Göttingen , Friedrich-Hund-Platz 1 , 37077 Göttingen , Germany
| | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESY , Notkestrasse 85 , 22607 Hamburg , Germany
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17
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Lalande M, Schwob L, Vizcaino V, Chirot F, Dugourd P, Schlathölter T, Poully J. Direct Radiation Effects on the Structure and Stability of Collagen and Other Proteins. Chembiochem 2019; 20:2972-2980. [DOI: 10.1002/cbic.201900202] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2019] [Revised: 05/28/2019] [Indexed: 12/11/2022]
Affiliation(s)
- Mathieu Lalande
- CIMAP LaboratoryUMR 6252CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen France
| | - Lucas Schwob
- Helmholtz AssociationDeutsches Elektronen-Synchrotron (DESY) Notkestrasse 85 22607 Hamburg Germany
| | - Violaine Vizcaino
- CIMAP LaboratoryUMR 6252CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen France
| | - Fabien Chirot
- Université Claude Bernard Lyon 1ENS de LyonUMR 5280 Institut des Sciences Analytiques 5, rue de la Doua 69100 Villeurbanne France
| | - Philippe Dugourd
- Université Claude Bernard Lyon 1CNRSUMR 5306 Institut Lumière Matière 10 rue Ada Byron 69622 Villeurbanne Cedex France
| | - Thomas Schlathölter
- Zernike Institute for Advanced MaterialsUniversity of Groningen Nijenborgh 4 9747 AG Groningen Netherlands
| | - Jean‐Christophe Poully
- CIMAP LaboratoryUMR 6252CEA/CNRS/ENSICAEN/Université de Caen Normandie) Boulevard Becquerel 14070 Caen France
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18
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Tenorio BNC, Moitra T, Nascimento MAC, Rocha AB, Coriani S. Molecular inner-shell photoabsorption/photoionization cross sections at core-valence-separated coupled cluster level: Theory and examples. J Chem Phys 2019; 150:224104. [PMID: 31202254 DOI: 10.1063/1.5096777] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Oxygen, nitrogen, and carbon K-shell photoabsorption and photoionization cross sections have been calculated within core-valence-separated coupled cluster (CC) linear response theory for a number of molecular systems, namely, water, ammonia, ethylene, carbon dioxide, acetaldehyde, furan, and pyrrole. The cross sections below and above the K-edge core ionization thresholds were obtained, on the same footing, from L2 basis set calculations of the discrete electronic pseudospectrum yielded by an asymmetric-Lanczos-based formulation of CC linear response theory at the CC singles and doubles (CCSD) and CC singles and approximate doubles (CC2) levels. An analytic continuation procedure for both discrete and continuum cross sections as well as a Stieltjes imaging procedure for the photoionization cross section were applied and the results critically compared.
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Affiliation(s)
- Bruno Nunes Cabral Tenorio
- Instituto de Química, Universidade Federal do Rio de Janeiro, UFRJ, Av. Athos da Silveira Ramos, 149, Rio de Janeiro, RJ 21941-909, Brazil
| | - Torsha Moitra
- DTU Chemistry, Technical University of Denmark, Kemitorvet, Building 207, DK-2800 Kongens Lyngby, Denmark
| | - Marco Antonio Chaer Nascimento
- Instituto de Química, Universidade Federal do Rio de Janeiro, UFRJ, Av. Athos da Silveira Ramos, 149, Rio de Janeiro, RJ 21941-909, Brazil
| | - Alexandre Braga Rocha
- Instituto de Química, Universidade Federal do Rio de Janeiro, UFRJ, Av. Athos da Silveira Ramos, 149, Rio de Janeiro, RJ 21941-909, Brazil
| | - Sonia Coriani
- DTU Chemistry, Technical University of Denmark, Kemitorvet, Building 207, DK-2800 Kongens Lyngby, Denmark
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19
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Egorov D, Bari S, Boll R, Dörner S, Deinert S, Techert S, Hoekstra R, Zamudio-Bayer V, Lindblad R, Bülow C, Timm M, von Issendorff B, Lau JT, Schlathölter T. Near-Edge Soft X-ray Absorption Mass Spectrometry of Protonated Melittin. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2018; 29:2138-2151. [PMID: 30047073 DOI: 10.1007/s13361-018-2035-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2018] [Revised: 07/10/2018] [Accepted: 07/10/2018] [Indexed: 06/08/2023]
Abstract
We have investigated the photoionization and photofragmentation yields of gas-phase multiply protonated melittin cations for photon energies at the K-shell absorption edges of carbon, nitrogen, and oxygen. Two similar experimental approaches were employed. In both experiments, mass selected [melittin+qH]q+ (q=2-4) ions were accumulated in radiofrequency ion traps. The trap content was exposed to intense beams of monochromatic soft X-ray photons from synchrotron beamlines and photoproducts were analyzed by means of time-of-flight mass spectrometry. Mass spectra were recorded for fixed photon energies, and partial ion yield spectra were recorded as a function of photon energy. The combination of mass spectrometry and soft X-ray spectroscopy allows for a direct correlation of protein electronic structure with various photoionization channels. Non-dissociative single and double ionization are used as a reference. The contribution of both channels to various backbone scission channels is quantified and related to activation energies and protonation sites. Soft X-ray absorption mass spectrometry combines fast energy deposition with single and double ionization and could complement established activation techniques. Graphical Abstract ᅟ.
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Affiliation(s)
- Dmitrii Egorov
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG, Groningen, Netherlands
| | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
| | - Rebecca Boll
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
| | - Simon Dörner
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
| | - Sascha Deinert
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
| | - Simone Techert
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607, Hamburg, Germany
- Institute of X-ray Physics, University of Göttingen, Friedrich-Hund-Platz 1, 37077, Göttingen, Germany
| | - Ronnie Hoekstra
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG, Groningen, Netherlands
| | - Vicente Zamudio-Bayer
- Institut für Methoden und Instrumentierung der Forschung mit Synchrotronstrahlung, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Physikalisches Institut, Universität Freiburg, Hermann-Herder-Str. 3, 79104, Freiburg, Germany
| | - Rebecka Lindblad
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Synkrotronljusfysik, Lunds Universitet, 22100, Lund, Sweden
| | - Christine Bülow
- Institut für Methoden und Instrumentierung der Forschung mit Synchrotronstrahlung, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstr. 36, 10623, Berlin, Germany
| | - Martin Timm
- Institut für Methoden und Instrumentierung der Forschung mit Synchrotronstrahlung, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstr. 36, 10623, Berlin, Germany
| | - Bernd von Issendorff
- Physikalisches Institut, Universität Freiburg, Hermann-Herder-Str. 3, 79104, Freiburg, Germany
| | - J Tobias Lau
- Institut für Methoden und Instrumentierung der Forschung mit Synchrotronstrahlung, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie, Albert-Einstein-Str. 15, 12489, Berlin, Germany
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747AG, Groningen, Netherlands.
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20
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Tenorio BNC, Oliveira RR, Nascimento MAC, Rocha AB. Coupled Cluster and Time-Dependent Density Functional Theory Description of Inner Shell Photoabsorption Cross Sections of Molecules. J Chem Theory Comput 2018; 14:5324-5338. [DOI: 10.1021/acs.jctc.8b00375] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Bruno Nunes Cabral Tenorio
- UFRJ - Universidade Federal do Rio de Janeiro, Instituto
de Química, Av. Athos da Silveira Ramos, 149, Rio de Janeiro 21941-909, Brasil
| | - Ricardo Rodrigues Oliveira
- UFRJ - Universidade Federal do Rio de Janeiro, Instituto
de Química, Av. Athos da Silveira Ramos, 149, Rio de Janeiro 21941-909, Brasil
| | - Marco Antonio Chaer Nascimento
- UFRJ - Universidade Federal do Rio de Janeiro, Instituto
de Química, Av. Athos da Silveira Ramos, 149, Rio de Janeiro 21941-909, Brasil
| | - Alexandre Braga Rocha
- UFRJ - Universidade Federal do Rio de Janeiro, Instituto
de Química, Av. Athos da Silveira Ramos, 149, Rio de Janeiro 21941-909, Brasil
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21
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Haitjema J, Wu L, Giuliani A, Nahon L, Castellanos S, Brouwer AM. Photo-induced Fragmentation of a Tin-oxo Cage Compound. J PHOTOPOLYM SCI TEC 2018. [DOI: 10.2494/photopolymer.31.243] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
| | - Lianjia Wu
- Advanced Research Center for Nanolithography
| | | | | | | | - Albert M. Brouwer
- Advanced Research Center for Nanolithography
- University of Amsterdam, van’t Hoff Institute for Molecular Sciences
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22
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Bari S, Egorov D, Jansen TLC, Boll R, Hoekstra R, Techert S, Zamudio‐Bayer V, Bülow C, Lindblad R, Leistner G, Ławicki A, Hirsch K, Miedema PS, von Issendorff B, Lau JT, Schlathölter T. Soft X-ray Spectroscopy as a Probe for Gas-Phase Protein Structure: Electron Impact Ionization from Within. Chemistry 2018; 24:7631-7636. [PMID: 29637635 PMCID: PMC6001477 DOI: 10.1002/chem.201801440] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2018] [Revised: 04/03/2018] [Indexed: 11/10/2022]
Abstract
Preservation of protein conformation upon transfer into the gas phase is key for structure determination of free single molecules, for example using X-ray free-electron lasers. In the gas phase, the helicity of melittin decreases strongly as the protein's protonation state increases. We demonstrate the sensitivity of soft X-ray spectroscopy to the gas-phase structure of melittin cations ([melittin+qH]q+ , q=2-4) in a cryogenic linear radiofrequency ion trap. With increasing helicity, we observe a decrease of the dominating carbon 1 s-π* transition in the amide C=O bonds for non-dissociative single ionization and an increase for non-dissociative double ionization. As the underlying mechanism we identify inelastic electron scattering. Using an independent atom model, we show that the more compact nature of the helical protein conformation substantially increases the probability for off-site intramolecular ionization by inelastic Auger electron scattering.
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Affiliation(s)
| | - Dmitrii Egorov
- Zernike Institute for Advanced MaterialsUniversity of GroningenNijenborgh 49747AGGroningenThe Netherlands
| | - Thomas L. C. Jansen
- Zernike Institute for Advanced MaterialsUniversity of GroningenNijenborgh 49747AGGroningenThe Netherlands
| | | | - Ronnie Hoekstra
- Zernike Institute for Advanced MaterialsUniversity of GroningenNijenborgh 49747AGGroningenThe Netherlands
| | - Simone Techert
- DESYNotkestr. 8522607HamburgGermany
- Institute of X-ray PhysicsUniversity of Göttingen37077GöttingenGermany
| | - Vicente Zamudio‐Bayer
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
- Physikalisches InstitutUniversität FreiburgHermann-Herder-Straße 379104FreiburgGermany
| | - Christine Bülow
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
- Institut für Optik und Atomare PhysikTechnische Universität Berlin10623BerlinGermany
| | - Rebecka Lindblad
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
- Department of PhysicsLund University22100LundSweden
| | - Georg Leistner
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
- Institut für Optik und Atomare PhysikTechnische Universität Berlin10623BerlinGermany
| | - Arkadiusz Ławicki
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
| | - Konstantin Hirsch
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
| | - Piter S. Miedema
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
| | - Bernd von Issendorff
- Physikalisches InstitutUniversität FreiburgHermann-Herder-Straße 379104FreiburgGermany
| | - J. Tobias Lau
- Institut für Methoden und Instrumentierung der Forschung mit, SynchrotronstrahlungHelmholtz Zentrum Berlin für Materialien und EnergieAlbert-Einstein-Str. 1512489BerlinGermany
- Physikalisches InstitutUniversität FreiburgHermann-Herder-Straße 379104FreiburgGermany
| | - Thomas Schlathölter
- Zernike Institute for Advanced MaterialsUniversity of GroningenNijenborgh 49747AGGroningenThe Netherlands
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23
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Schwob L, Lalande M, Chesnel JY, Domaracka A, Huber BA, Maclot S, Poully JC, Rangama J, Rousseau P, Vizcaino V, Adoui L, Méry A. A tandem mass spectrometer for crossed-beam irradiation of mass-selected molecular systems by keV atomic ions. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2018; 89:043104. [PMID: 29716322 DOI: 10.1063/1.5023182] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
In the present paper, we describe a new home-built crossed-beam apparatus devoted to ion-induced ionization and fragmentation of isolated biologically relevant molecular systems. The biomolecular ions are produced by an electrospray ionization source, mass-over-charge selected, accumulated in a 3D ion trap, and then guided to the extraction region of an orthogonal time-of-flight mass spectrometer. Here, the target molecular ions interact with a keV atomic ion beam produced by an electron cyclotron resonance ion source. Cationic products from the collision are detected on a position sensitive detector and analyzed by time-of-flight mass spectrometry. A detailed description of the operation of the setup is given, and early results from irradiation of a protonated pentapeptide (leucine-enkephalin) by a 7 keV He+ ion beam are presented as a proof-of-principle.
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Affiliation(s)
- Lucas Schwob
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Mathieu Lalande
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Jean-Yves Chesnel
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Alicja Domaracka
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Bernd A Huber
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Sylvain Maclot
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | | | - Jimmy Rangama
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Patrick Rousseau
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Violaine Vizcaino
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Lamri Adoui
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Alain Méry
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
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24
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Milosavljević AR, Rousseau P, Domaracka A, Huber BA, Giuliani A. Multiple electron capture from isolated protein poly-anions in collision with slow highly charged ions. Phys Chem Chem Phys 2017; 19:19691-19698. [DOI: 10.1039/c7cp02075a] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Multiply charged ions very efficiently capture several electrons from trapped mass/charge selected protein poly-anions, producing dominantly charge-reduced proteins and small neutral losses.
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Affiliation(s)
- A. R. Milosavljević
- Synchrotron SOLEIL
- 91192 Gif-sur-Yvette
- France
- Institute of Physics Belgrade
- University of Belgrade
| | | | | | | | - A. Giuliani
- Synchrotron SOLEIL
- 91192 Gif-sur-Yvette
- France
- INRA
- U1008
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25
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Schwob L, Lalande M, Rangama J, Egorov D, Hoekstra R, Pandey R, Eden S, Schlathölter T, Vizcaino V, Poully JC. Single-photon absorption of isolated collagen mimetic peptides and triple-helix models in the VUV-X energy range. Phys Chem Chem Phys 2017; 19:18321-18329. [DOI: 10.1039/c7cp02527k] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
By monitoring ionization and fragmentation after single-photon absorption, we show that an isolated collagen triple helix model is stabilized by proline hydroxylation.
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Affiliation(s)
- Lucas Schwob
- CIMAP
- UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Mathieu Lalande
- CIMAP
- UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Jimmy Rangama
- CIMAP
- UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Dmitrii Egorov
- Zernike Institute for Advanced Materials
- University of Groningen
- Nijenborgh 4
- 9747AG Groningen
- The Netherlands
| | - Ronnie Hoekstra
- Zernike Institute for Advanced Materials
- University of Groningen
- Nijenborgh 4
- 9747AG Groningen
- The Netherlands
| | - Rahul Pandey
- Dept. of Physical Sciences
- The Open University
- Walton Hall
- Milton Keynes
- UK
| | - Samuel Eden
- Dept. of Physical Sciences
- The Open University
- Walton Hall
- Milton Keynes
- UK
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials
- University of Groningen
- Nijenborgh 4
- 9747AG Groningen
- The Netherlands
| | - Violaine Vizcaino
- CIMAP
- UMR 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
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26
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Schwob L, Lalande M, Egorov D, Rangama J, Hoekstra R, Vizcaino V, Schlathölter T, Poully JC. Radical-driven processes within a peptidic sequence of type I collagen upon single-photon ionisation in the gas phase. Phys Chem Chem Phys 2017; 19:22895-22904. [DOI: 10.1039/c7cp03376a] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Radical creation after single-photon ionisation of collagen peptides induces the loss of molecules from amino-acid residue side-chains.
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Affiliation(s)
- Lucas Schwob
- CIMAP
- UMP 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Mathieu Lalande
- CIMAP
- UMP 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Dmitrii Egorov
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
| | - Jimmy Rangama
- CIMAP
- UMP 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Ronnie Hoekstra
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
| | - Violaine Vizcaino
- CIMAP
- UMP 6252 (CEA/CNRS/ENSICAEN/Université de Caen Normandie)
- Caen
- France
| | - Thomas Schlathölter
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
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27
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Egorov D, Hoekstra R, Schlathölter T. A comparative VUV absorption mass-spectroscopy study on protonated peptides of different size. Phys Chem Chem Phys 2017; 19:20608-20618. [DOI: 10.1039/c7cp03203j] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
The response of gas-phase peptides upon vacuum ultraviolet absorption depends strongly on the peptide size.
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Affiliation(s)
- D. Egorov
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
| | - R. Hoekstra
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
| | - T. Schlathölter
- Zernike Institute for Advanced Materials
- University of Groningen
- 9747AG Groningen
- The Netherlands
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